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Bioinformatics Resources Collection

A comprehensive collection of bioinformatics resources, focusing on single-cell RNA sequencing (scRNA-seq) and related fields. This repository organizes resources into different categories for easy access and reference.

Important

NEW: Web Admin Interface Available! We've added a visual web management tool to easily add and update resources. Run python start_web_admin.py to access the interface at http://localhost:5001. This tool features smart paper information extraction, bilingual support, and seamless integration with the existing workflow.

📚 Categories

Research papers focusing on biological insights and discoveries using single-cell omics data.

Latest Highlights:

Journal Date Title Code Data Citation
Nature Network Boston 2024 A brain cell atlas integrating single-cell transcriptomes across human brain regions R Website citation

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Computational methods and tools for analyzing single-cell data.

Latest Highlights:

Journal Date Title Code Data Citation
Nature Communications 2022 Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data with SpaTalk R Website citation

View all methods →

Learning Resources

Curated blog posts and articles about scRNA-seq and related topics.

Field Title
Aging FIGHT AGING!

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Recommended books and learning materials.

Field Title
Causal Inference A First Course in Causal Inference

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Useful databases for bioinformatics research.

Field Database Description Related paper
Single-cell STAB STAB2 (Spatio-Temporal Cell Atlas of Brain) provides a landscape of cell types as well as their regional heterogeneity and temporal dynamics across the human and mouse brain

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Research laboratories and groups in the field.

Field Lab Masterpiece
Bioinformatics tools satijalab

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🤝 Contributing

Interested in contributing? We welcome contributions of all kinds:

  1. Add new resources through pull requests
  2. Report issues or suggest improvements
  3. Help with documentation and examples

See contribution guidelines for more details.

📝 Maintenance

For information about maintaining this project, please see:

Last updated: 2025-06-21

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This repository is used to collect some useful methods, related labs, blogs and database about bioinformatics.

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